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PNNL-CompBio
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BeatAMLproteomics
Analysis of the 210 patient cohort processed by the OHSU/PNNL PTRC
MIT License
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Small updates to plots + subtype AUC interaction
#71
CamiloPosso
opened
1 year ago
0
Catching up
#70
CamiloPosso
closed
2 years ago
0
Subtype prediction updates
#69
CamiloPosso
closed
2 years ago
0
Adding mutation modeling scripts.
#68
CamiloPosso
closed
2 years ago
0
Mutational analysis updates + saving individual alpha = 0.7 plots
#67
CamiloPosso
closed
2 years ago
0
Added mutation enrichment summary
#66
CamiloPosso
closed
2 years ago
0
Adding Figure 2 working scripts
#65
CamiloPosso
closed
2 years ago
1
Updating subtype and data type colors
#64
CamiloPosso
closed
2 years ago
0
Updating NMF analysis
#63
CamiloPosso
closed
2 years ago
1
Enrichment analysis using MAGINE
#62
JamesPino
closed
2 years ago
1
Assess correlation of correlations
#61
sgosline
opened
2 years ago
0
Run decomprolute on additional matrices
#60
sgosline
opened
2 years ago
0
Additional figure 3 panels
#59
sgosline
opened
2 years ago
1
Predict proteomic subtypes of MOLM14 and HL60 cell lines
#58
sgosline
opened
2 years ago
3
Figure 2 panels
#57
sgosline
opened
2 years ago
3
Mutational analysis networks
#56
CamiloPosso
closed
2 years ago
0
Mutational analysis PeCorA update
#55
CamiloPosso
closed
2 years ago
0
Updated the circos plot summary
#54
CamiloPosso
closed
2 years ago
0
added updated deconvolution
#53
sgosline
closed
2 years ago
1
Build networks using differential expression from gene mutations
#52
sgosline
closed
2 years ago
1
Add in drug data (bar plots?) to circos plot
#51
sgosline
closed
2 years ago
1
Mutational analysis updates
#50
CamiloPosso
closed
2 years ago
0
Compute tumor purity
#49
sgosline
closed
2 years ago
0
THink about how network mapping before prediction can improve peptide usability
#48
sgosline
opened
2 years ago
0
Measure tumor purity from ESTIMATE
#47
sgosline
closed
2 years ago
0
Updated mutational analysis scripts
#46
CamiloPosso
closed
2 years ago
0
Added plotting of tumor deconvolution
#45
sgosline
closed
2 years ago
0
Added circos plot summary of data availability
#44
CamiloPosso
closed
2 years ago
0
Added circos plot summary markdown
#43
CamiloPosso
closed
2 years ago
1
added in deconvolution computation
#42
sgosline
closed
2 years ago
0
Repo restructure
#41
sgosline
closed
2 years ago
0
Remove development regression model files
#40
JamesPino
opened
2 years ago
0
Python additions
#39
JamesPino
closed
2 years ago
1
Deleted old load_data script
#38
CamiloPosso
closed
2 years ago
0
Added mutational analysis helper functions and initial mutational analysis report
#37
CamiloPosso
closed
2 years ago
1
Repo restructure
#36
sgosline
closed
2 years ago
0
Updated NMF scripts to include the WES mutation dataset
#35
CamiloPosso
closed
2 years ago
0
Kaplan meier + feature extraction
#34
CamiloPosso
closed
2 years ago
0
loading_data few updates
#33
CamiloPosso
closed
2 years ago
0
Search for peptides that give rise to differential response wrt protein levels
#32
sgosline
opened
2 years ago
0
Updated loading_data.R and added metadata upload script
#31
CamiloPosso
closed
2 years ago
0
Determine which clinical metadata to include in synapse table
#30
sgosline
closed
2 years ago
0
Small fix to cluster definition and pushing clinical summary to synapse
#29
CamiloPosso
closed
2 years ago
0
Errors in fig0_buildModels_holdOutData.Rmd
#28
VincentDanna
closed
2 years ago
1
added basic analysis of top genes
#27
sgosline
closed
2 years ago
2
Added significance of enrichment and updated NMF summary markdown.
#26
CamiloPosso
closed
2 years ago
1
added some updates to the data pulling
#25
sgosline
closed
2 years ago
0
Update readme to describe synapse tables
#24
sgosline
closed
2 years ago
0
Repo restructure
#23
sgosline
closed
2 years ago
0
Updated loading functions. Added updated correction script for phospho data, as well as the nmf scripts (in progress)
#22
CamiloPosso
closed
2 years ago
1
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